Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
PGR

Cell type

Cell type Class
Breast
Cell type
T-47D
Primary Tissue
Breast
Tissue Diagnosis
Adenocarcinoma Ductal

Attributes by original data submitter

Sample

source_name
ChIP-seq PR T0 rep1
cell line
T47D

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
RNA was extracted from cells treated or not for 6hs with 50pM or 10nM R5020 and submitted to massive sequencing using the Solexa Genome Analyzer. RNA was isolated from cells with TRIzol reagent (Ambion), ethanol precipitated, and dissolved in sterile water. RNA concentration was measured with a Qubit fluorometer and RNA subjected to Bioanalyzer for quality control. Libraries were prepared using 1 μg of polyA+ RNA by PCR amplification of cDNA with bar-coded primers using the Illumina TruSeq kit at the CRG Genomic Facility. Libraries were sequenced using Illumina HIseq- 2500 to obtain pair-ended (PE) 100-base-long reads. ChIP assays were performed as described (Strutt and Paro, 1999)

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg38

Number of total reads
64982965
Reads aligned (%)
98.8
Duplicates removed (%)
11.6
Number of peaks
1145 (qval < 1E-05)

hg19

Number of total reads
64982965
Reads aligned (%)
97.8
Duplicates removed (%)
11.9
Number of peaks
564 (qval < 1E-05)

Base call quality data from DBCLS SRA